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At least 109 records · Page 6

Novel Gloeobacterales spp. from Diverse Environments across the Globe

Photosynthetic Cyanobacteria and their descendants are the only known organisms capable of oxygenic photosynthesis. Their metabolism permanently changed the Earth’s surface and the evolutionary trajectory of life, but little is known about their evolutionary history. Genomes of the Gloeobacterales, an order of deeply divergent photosynthetic Cyanobacteria, may hold clues about the evolutionary process. However, there are only three published genomes within this order, and it is difficult to make broad inferences based on such little data. Here, I describe five species within the Gloeobacterales retrieved from publicly available databases and examine their photosynthetic gene content and the environments in which Gloeobacterales genomes and 16S rRNA gene sequences are found. The Gloeobacterales contain reduced photosystems and inhabit cold, wet-rock, and low-light environments. They are likely present in low abundances due to their low growth rate. Future searches for Gloeobacterales should target these environments, and samples should be deeply sequenced to capture the low-abundance taxa. Publicly available databases contain undescribed taxa within the Gloeobacterales. However, searching through all available data with current methods is computationally expensive. Therefore, new methods must be developed to search for these and other evolutionarily important taxa. Once identified, these novel photosynthetic Cyanobacteria will help illuminate the origin and evolution of oxygenic photosynthesis. Early branching photosynthetic Cyanobacteria such as the Gloeobacterales may provide clues into the evolutionary history of oxygenic photosynthesis, but there are few genomes or cultured taxa from this order. Five new metagenome-assembled genomes suggest that members of the Gloeobacterales all contain reduced photosystems and lack genes associated with thylakoids and circadian rhythms. Their distribution suggests that they may thrive in environments that are marginal for other species, including wet-rock and cold environments. These traits may aid in the discovery and cultivation of novel species in this clade.

59 BASIC BIOLOGICAL SCIENCES↗

Comparative genomics reveals the high diversity and adaptation strategies of Polaromonas from polar environments

Abstract Background Bacteria from the genus Polaromonas are dominant phylotypes found in a variety of low-temperature environments in polar regions. The diversity and biogeographic distribution of Polaromonas have been largely expanded on the basis of 16 S rRNA gene amplicon sequencing. However, the evolution and cold adaptation mechanisms of Polaromonas from polar regions are poorly understood at the genomic level. Results A total of 202 genomes of the genus Polaromonas were analyzed, and 121 different species were delineated on the basis of average nucleotide identity (ANI) and phylogenomic placements. Remarkably, 8 genomes recovered from polar environments clustered into a separate clade (‘polar group’ hereafter). The genome size, coding density and coding sequences (CDSs) of the polar group were significantly different from those of other nonpolar Polaromonas . Furthermore, the enrichment of genes involved in carbohydrate and peptide metabolism was evident in the polar group. In addition, genes encoding proteins related to betaine synthesis and transport were increased in the genomes from the polar group. Phylogenomic analysis revealed that two different evolutionary scenarios may explain the adaptation of Polaromonas to cold environments in polar regions. Conclusions The global distribution of the genus Polaromonas highlights its strong adaptability in both polar and nonpolar environments. Species delineation significantly expands our understanding of the diversity of the Polaromonas genus on a global scale. In this study, a polar-specific clade was found, which may represent a specific ecotype well adapted to polar environments. Collectively, genomic insight into the metabolic diversity, evolution and adaptation of the genus Polaromonas at the genome level provides a genetic basis for understanding the potential response mechanisms of Polaromonas to global warming in polar regions.

54 ENVIRONMENTAL SCIENCES↗

DETECTING FIRE WITH MACHINE LEARNING-ENABLED VISUAL MONITORING FOR NUCLEAR POWER PLANT ENVIRONMENTS

Nuclear power plants are experiencing significant cost challenges to remain competitive with other energy-generation utilities. Unlike other industries, the cost of operation and maintenance activities is mostly attributed to workforce costs. To mitigate this, nuclear power plant stakeholders are increasingly interested in the development and deployment of machine learning methods to potentially automate or augment manually intensive tasks to reduce costs, especially for monitoring activities. One monitoring function that is visually demanding and that can occur frequently to meet the requirements of a fire protection program is visually monitoring an area for fire occurrence. Currently, fire watch activities consist of a worker physically stationed at a given location with the sole responsibility of observing a given area to ensure a fire is detected and mitigated promptly. This effort focused on the development and evaluation of a suitable deep convolutional neural network to classify individual video frames at a sub-second frequency for the occurrence of “fire” and “no fire” in varying industrial environments similar to nuclear power plants. It is believed that a trained neural network model could be integrated with existing facility video surveillance camera feeds to generate alerts when fire inferences occur in individual frames captured at sub-second temporal resolutions. Extensive effort was dedicated to identifying and curating suitable imagery training data representing varying environments and scene settings with and without flame features to maximize generalization in nuclear power plant environments. The data collection effort resulted in the aggregation of a large, labeled image library exceeding 12,000 images to support model training for diverse industrial environments. A deep neural network model incorporating parallel multi-scale capabilities was developed and trained to support accurate image-based detection of flame incidents of varying sizes and spectral feature properties within heterogeneous scenes. Analysis results show that the trained model can achieve high inference accuracy despite heterogeneous scene environments and components. Testing accuracy exceeded 95.0 percent with very low false positive and false negative inferences.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Materials properties characterization in the most extreme environments

Abstract There is an ever-increasing need for material systems to operate in the most extreme environments encountered in space exploration, energy production, and propulsion systems. To effectively design materials to reliably operate in extreme environments, we need an array of tools to both sustain lab-scale extreme conditions and then probe the materials properties across a variety of length and time scales. Within this article, we examine the state-of-the-art experimental systems for testing materials under extreme environments and highlight the limitations of these approaches. We focus on three areas: (1) extreme temperatures, (2) extreme mechanical testing, and (3) chemically hostile environments. Within these areas, we identify six opportunities for instrument and technique development that are poised to dramatically impact the further understanding and development of next-generation materials for extreme environments. Graphical abstract

Schreiber, Daniel K.↗

Saturn Radiation Dose Environment Characterization

To understand the environment where a time-resolved hard x-ray spectrometer (AXIOM) might be fielded, experiments and simulations were performed to analyze the radiation dose environment underneath the Saturn vacuum dome. Knowledge of this environment is critical to the design and placement of the spectrometer. Experiments demonstrated that the machine performance, at least in terms of on-axis dose, has not significantly changed over the decades. Simulations of the off-axis dose were performed to identify possible spectrometer locations of interest. The effects from the source and dome hardware as well as source distributions and angles of incidence on the radiation environment were also investigated. Finally, a unified radiation transport model was developed for two widely used radiation transport codes to investigate the off-axis dose profiles and the time-dependent x-ray energy spectrum. The demonstrated equivalence of the unified radiation transport model between the radiation transport codes allows the team to tie future time-dependent x-ray environment calculations to previous integral simulations for the Saturn facility.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

FY22 Year End Report of Delivery Environments Predictive Capabilities Use in Analysis of SRP Programs

As was established in a previous milestone report for FY20, W-13 continues to be tasked with analyses that require knowledge of in-flight environments and require an in-house capability to generate such environments. To this end, FY21 work included obtaining and benchmarking the use of such tools for an in-house capability. With these tools available for analysis tasks, FY22 work has been to continue the development of analysis for Responsive Development Experiment (ReDX) flights in the Stockpile Responsiveness Program (SRP). While no flights were executed in FY22 that leveraged internal flight analysis., this report shows that both CBAERO and TAOS were used in W-13 under the Delivery Environments Program for the FY22 milestone in order to predict the flight environments of ReDX flight 3 and determine preliminary environments of the Calypso flight vehicle which includes a deployable heat shield.

42 ENGINEERING↗

Universal Utility Data Exchange (UUDEX) Phase 4 Demonstration Environment and Results

This report provides an overview of the environment used by the Pacific Northwest National Laboratory (PNNL) in the Universal Utility Data Exchange (UUDEX) Phase 4 demonstration, and description of the demonstrations performed in the environment. The UUDX Phase 4 demonstration took place on March 31, 2021, with representatives from PNNL and the two project sub-contractors, OATI and MITRE, performing the demonstration for members of the UUDEX Industry Advisory Board (IAB). The demonstration tasks were based on the previous Phase 3 demonstration but conducted in a multi-site environment. Additional demonstrations showed features that were developed since the Phase 3 demonstration. The development environment was constructed by PNNL programming staff using the previously developed UUDEX Functional Design, Protocol Design, and Workflow Design documents as a starting point. The environment was augmented with subject creation management and access control security data structures and workflows, and data exchange structure documents developed as part of Phase 3 and Phase 4.

97 MATHEMATICS AND COMPUTING↗

Assessment of Vibration and Shock Loading Environments on Steels Used in Railroad Applications Considering Hydrogen Embrittlement

Studies that examine the combined effects of hydrogen and rail loading environments in the context of hydrogen embrittlement of steels have not been performed. Large-scale hydrogen storage requires either gaseous hydrogen stored in pressure vessels and tubing or liquid hydrogen in cryogenic, insulated tanks. Since the focus of this study is on steels, we examine the influence of hydrogen on stainless steel used for high pressure tubing and cryogenic tanks and Cr-Mo steel liners used in gaseous pressure vessels. Literature studies show that despite hydrogen degradation, these steels can be used effectively and safely if the stresses are managed. The shock and vibration environment on railcars present unique environments where stresses and loading rates can be high. A literature review was conducted to understand the accelerations experienced in rail by examining instrumented railcars of nuclear fuel casks. Hydrogen studies were examined that focused on steel pressure hardware with an emphasis on fatigue, fast loading rates, and low temperatures. A simplified fatigue assessment was performed to examine design cycles for three different hydrogen components: stainless steel tubing, stainless steel cryogenic tanks, and gaseous pressure vessels. The assessments were idealized and used bounding cases of accelerations in both normal rail conditions and coupling events. In normal shock and vibration environments when accelerations were less than 2 g, infinite design life was calculated. In extreme shock or coupling environments, finite design life was calculated which was shown to be dependent on unsupported lengths of pressure components. It was shown that adjusting the unsupported length can reduce the bending stress thereby increasing design life.

36 MATERIALS SCIENCE↗

Portable Software Environment for Ultrahigh-Resolution ELM Development on GPUs

This paper presents our endeavors in developing the large-scale, ultra-high-resolution E3SM Land Model (uELM), specifically designed for exascale computers furnished with accelerators such as Nvidia GPUs. The uELM is a sophisticated code that substantially relies on High-Performance Computing (HPC) environments, necessitating particular machine and software configurations. To facilitate community-based uELM developments employing GPUs, we have created a portable, standalone software environment preconfigured with uELM input datasets, simulation cases, and source code. This environment, utilizing Docker, encompasses all essential code, libraries, and system software for uELM development on GPUs. It also features a functional unit test framework and an offline model testbed for comprehensive numerical experiments. From a technical perspective, the paper discusses GPU-ready container generations, uELM code management, and input data distribution across computational platforms. Lastly, the paper demonstrates the use of environment for functional unit testing, end-to-end simulation on CPUs and GPUs, and collaborative code development.

E3SM Land Model↗

Maximum Impact of Ionic Strength on Acid‐Catalyzed Reaction Rates Induced by a Zeolite Microporous Environment

Abstract The intracrystalline ionic environment in microporous zeolite can remarkably modify the excess chemical potential of adsorbed reactants and transition states, thereby influencing the catalytic turnover rates. However, a limit of the rate enhancement for aqueous‐phase dehydration of alcohols appears to exist for zeolites with high ionic strength. The origin of such limitation has been hypothesized to be caused by the spatial constraints in the pores via, e.g., size exclusion effects. It is demonstrated here that the increase in turnover rate as well as the formation of a maximum and the rate drop are intrinsic consequences of the increasingly dense ionic environment in zeolite. The molecularly sized confines of zeolite create a unique ionic environment that monotonically favors the formation of alcohol‐hydronium ion complexes in the micropores. The zeolite microporous environment determines the kinetics of catalytic steps and tailors the impact of ionic strength on catalytic rates.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

State of the Art of Molecular Visualization in Immersive Virtual Environments

Abstract Visualization plays a crucial role in molecular and structural biology. It has been successfully applied to a variety of tasks, including structural analysis and interactive drug design. While some of the challenges in this area can be overcome with more advanced visualization and interaction techniques, others are challenging primarily due to the limitations of the hardware devices used to interact with the visualized content. Consequently, visualization researchers are increasingly trying to take advantage of new technologies to facilitate the work of domain scientists. Some typical problems associated with classic 2D interfaces, such as regular desktop computers, are a lack of natural spatial understanding and interaction, and a limited field of view. These problems could be solved by immersive virtual environments and corresponding hardware, such as virtual reality head‐mounted displays. Thus, researchers are investigating the potential of immersive virtual environments in the field of molecular visualization. There is already a body of work ranging from educational approaches to protein visualization to applications for collaborative drug design. This review focuses on molecular visualization in immersive virtual environments as a whole, aiming to cover this area comprehensively. We divide the existing papers into different groups based on their application areas, and types of tasks performed. Furthermore, we also include a list of available software tools. We conclude the report with a discussion of potential future research on molecular visualization in immersive environments.

97 MATHEMATICS AND COMPUTING↗

Local adaptation of switchgrass drives trait relations to yield and differential responses to climate and soil environments

Abstract Switchgrass, a potential biofuel crop, is a genetically diverse species with phenotypic plasticity enabling it to grow in a range of environments. Two primary divergent ecotypes, uplands and lowlands, exhibit trait combinations representative of acquisitive and conservative growth allocation strategies, respectively. Whether these ecotypes respond differently to various types of environmental drivers remains unclear but is crucial to understanding how switchgrass varieties will respond to climate change. We grew two upland, two lowland, and two intermediate/hybrid cultivars of switchgrass at three sites along a latitudinal gradient in the central United States. Over a 4‐year period, we measured plant functional traits and biomass yields and evaluated genotype‐by‐environment (G × E) interaction effects by analyzing switchgrass responses to soil and climate variables. We found substantial evidence of G × E interactions on biomass yield, primarily due to deviations in the response of the southern lowland cultivar Alamo, which produced more biomass in hotter and drier environments relative to other cultivars. While lowland cultivars had the highest potential for yield, their yields were more variable year‐to‐year compared to other cultivars, suggesting greater sensitivity to environmental perturbations. Models comparing soil and climate principal components as explanatory variables revealed soil properties, especially nutrients, to be most effective at predicting switchgrass biomass yield. Also, positive correlations between biomass yield and conservative plant traits, such as high stem mass and tiller height, became stronger at lower latitudes where the climate is hotter and drier, regardless of ecotype. Lowland cultivars, however, showed a greater predisposition to exhibit these conservative traits. These results suggest switchgrass trait allocation trade‐offs that prioritize aboveground biomass production are more tightly associated in hot, dry environments and that lowland cultivars may exhibit a more specialized strategy relative to other cultivars. Altogether, this research provides essential knowledge for improving the viability of switchgrass as a biofuel crop.

09 BIOMASS FUELS↗

Lithologies and Depositional Environments for the NATCARB Saline Reservoirs

This dataset summarize the results of a literature review performed to define the primary lithologies and depositional environments for the target reservoir units defined by the National Carbon Sequestration Database (NATCARB) Saline reservoir 10km Grid data layer, accessible at https://edx.netl.doe.gov/dataset/natcarb. The potential saline storage reservoirs, defined in the Saline 10km Grid layer and in this sheet as "RESOURCE_NAME", were summarized and a literature review was completed to define the primary lithology and depositional environment, and sometimes a secondary lithology and depositional environment for each rock unit. If no verifiable resources were found during the literature review, the primary and secondary lithology and depositional environments were left blank. This file is organized by sheets for each of the 7 Regional Carbon Sequestration Partnerships (RCSP): Big Sky Carbon Sequestration Partnership (BSCSP), the Midwest Geological Sequestration Consortium (MGSC), the Midwest Regional Carbon Sequestration Partnership (MRCSP), the Plains CO₂ Reduction Partnership (PCOR), the Southeast Regional Carbon Sequestration Partnership (SECARB), the Southwest Regional Partnership on Carbon Storage (SWP), and the West Coast Regional Carbon Sequestration Partnership (WESTCARB). The partnerships last updated the NATCARB database in 2015.

Basin↗

Synthetic Digital Environments for Training Robots on Earth & Beyond [Poster]

Creating physical replicas of real-world environments to train robots for challenging outdoor tasks, whether constructing energy infrastructure like solar farms on Earth or on the Moon and Mars, is prohibitively expensive. This project will prototype a high-fidelity digital twin framework using NVIDIA IsaacSim to create realistic digital representations of robotic systems and their operating conditions, including varied terrains and environmental factors, allowing robots to learn and adapt in a faster, safer, and more affordable way to tackle unpredictable challenges in terrestrial and extraterrestrial applications. The Robotic Space Exploration (RoSE) Lab at Colorado School of Mines focused on the development and testing of synthetic digital twins to explore multi-physics interactions between robots and unstructured environments, with emphasis on lunar conditions such as deformable regolith, reduced gravity, and terrain-robot contact dynamics. The Industrialized Construction Innovation (ICI) team at National laboratory of the Rockies (NLR), simulated robotic apparatus and construction workflows using synthetic digital twins to inform real-world deployment, targeting application-driven use cases such as robotic construction of a scaled prototype of a photovoltaic energy infrastructure. Joint efforts between RoSE and ICI are continuing to explore how environment-scale multi-physics modeling and application-level robotic system simulation could be integrated to support robotic construction of energy infrastructure in highly unstructured environments, including scenarios relevant to the Lunar South Pole.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Adaptive Phenotypic Plasticity Stabilizes Evolution in Fluctuating Environments

Fluctuating environmental conditions are ubiquitous in natural systems, and populations have evolved various strategies to cope with such fluctuations. The particular mechanisms that evolve profoundly influence subsequent evolutionary dynamics. One such mechanism is phenotypic plasticity, which is the ability of a single genotype to produce alternate phenotypes in an environmentally dependent context. Here, we use digital organisms (self-replicating computer programs) to investigate how adaptive phenotypic plasticity alters evolutionary dynamics and influences evolutionary outcomes in cyclically changing environments. Specifically, we examined the evolutionary histories of both plastic populations and non-plastic populations to ask: (1) Does adaptive plasticity promote or constrain evolutionary change? (2) Are plastic populations better able to evolve and then maintain novel traits? And (3), how does adaptive plasticity affect the potential for maladaptive alleles to accumulate in evolving genomes? We find that populations with adaptive phenotypic plasticity undergo less evolutionary change than non-plastic populations, which must rely on genetic variation from de novo mutations to continuously readapt to environmental fluctuations. Indeed, the non-plastic populations undergo more frequent selective sweeps and accumulate many more genetic changes. We find that the repeated selective sweeps in non-plastic populations drive the loss of beneficial traits and accumulation of maladaptive alleles, whereas phenotypic plasticity can stabilize populations against environmental fluctuations. This stabilization allows plastic populations to more easily retain novel adaptive traits than their non-plastic counterparts. In general, the evolution of adaptive phenotypic plasticity shifted evolutionary dynamics to be more similar to that of populations evolving in a static environment than to non-plastic populations evolving in an identical fluctuating environment. All natural environments subject populations to some form of change; our findings suggest that the stabilizing effect of phenotypic plasticity plays an important role in subsequent adaptive evolution.

54 ENVIRONMENTAL SCIENCES↗

Antioxidant Activity in Supramolecular Carotenoid Complexes Favored by Nonpolar Environment and Disfavored by Hydrogen Bonding

Carotenoids are well-known antioxidants. They have the ability to quench singlet oxygen and scavenge toxic free radicals preventing or reducing damage to living cells. We have found that carotenoids exhibit scavenging ability towards free radicals that increases nearly exponentially with increasing the carotenoid oxidation potential. With the oxidation potential being an important parameter in predicting antioxidant activity, we focus here on the different factors affecting it. This paper examines how the chain length and donor/acceptor substituents of carotenoids affect their oxidation potentials but, most importantly, presents the recent progress on the effect of polarity of the environment and orientation of the carotenoids on the oxidation potential in supramolecular complexes. The oxidation potential of a carotenoid in a nonpolar environment was found to be higher than in a polar environment. Moreover, in order to increase the photostability of the carotenoids in supramolecular complexes, a nonpolar environment is desired and the formation of hydrogen bonds should be avoided.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The Environments of Green Pea Galaxies. I. The KISS Sample

We present environmental analyses for 13 KPNO International Spectroscopic Survey Green Pea (GP) galaxies. These galaxies were discovered via their strong [O ιιι] emission in the redshift range 0.29 < z < 0.42, and they are undergoing a major burst of star formation. A primary goal of this study is to understand what role the environment plays in driving the current star formation activity. By studying the environments around these extreme star-forming galaxies, we can learn more about what triggers their star formation processes and how they fit into the narrative of galaxy evolution. Using the Hydra multifiber spectrograph on the WIYN 3.5 m telescope, we mapped out the galaxy distribution around each of the GPs (out to ~15 Mpc at the redshifts of the targets). Using three density analysis methodologies chosen for their compatibility with the geometry of our redshift survey, we categorized the galaxian densities of the GPs into different density regimes. We find that the GPs in our sample tend to be located in low-density environments. We find no correlation between the density and the SFRs seen in the GPs. We conclude that the environments the GPs are found in are likely not the driving factor behind their extreme star formation activity.

79 ASTRONOMY AND ASTROPHYSICS↗

Maximum Impact of Ionic Strength on Acid‐Catalyzed Reaction Rates Induced by a Zeolite Microporous Environment

Abstract The intracrystalline ionic environment in microporous zeolite can remarkably modify the excess chemical potential of adsorbed reactants and transition states, thereby influencing the catalytic turnover rates. However, a limit of the rate enhancement for aqueous‐phase dehydration of alcohols appears to exist for zeolites with high ionic strength. The origin of such limitation has been hypothesized to be caused by the spatial constraints in the pores via, e.g., size exclusion effects. It is demonstrated here that the increase in turnover rate as well as the formation of a maximum and the rate drop are intrinsic consequences of the increasingly dense ionic environment in zeolite. The molecularly sized confines of zeolite create a unique ionic environment that monotonically favors the formation of alcohol‐hydronium ion complexes in the micropores. The zeolite microporous environment determines the kinetics of catalytic steps and tailors the impact of ionic strength on catalytic rates.

Liu, Qiang↗